SMTL ID : 4c71.1

Crystal structure of M. tuberculosis C171Q KasA in complex with TLM18

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

9 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: D.92, Y.105, P.224 Ligands: M7U.8 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.92 EDO.2: 8 residues within 4Å: Chain A: R.144, E.147, S.148, L.151, V.160, S.161, A.164, M.167 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.161 EDO.3: 5 residues within 4Å: Chain A: Y.149, M.152, N.153 Chain B: W.77, L.228 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:W.77 EDO.4: 6 residues within 4Å: Chain A: R.102, M.103, Q.107, L.163, Q.166, M.167 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.107, A:Q.107 EDO.9: 6 residues within 4Å: Chain A: T.315, L.318, E.319, L.323, S.324, P.325 2 PLIP interactions: 2 interactions with chain A Water bridges: A:L.318, A:L.323 EDO.10: 6 residues within 4Å: Chain A: W.77, D.78, L.79, A.80 Chain B: P.157, R.158 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:A.80 Water bridges: A:V.81, B:R.158, B:R.158, B:R.158 EDO.11: 4 residues within 4Å: Chain A: W.77, L.228 Chain B: Y.149, N.153 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Water bridges: A:K.76, A:W.77 Hydrogen bonds: B:N.153 EDO.15: 5 residues within 4Å: Chain B: S.234, R.237, A.238, M.239, T.241 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.237, B:M.239, B:M.239 Water bridges: B:A.238 EDO.16: 5 residues within 4Å: Chain B: T.315, L.318, E.319, L.323, P.325 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.315 Water bridges: B:E.319, B:E.319, B:G.322

2 x K: POTASSIUM ION(Non-covalent)

K.5: 6 residues within 4Å: Chain A: N.332, A.333, H.334, E.377, N.422, N.423 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:N.332, A:A.333, A:E.377, A:N.423 K.12: 6 residues within 4Å: Chain B: N.332, A.333, H.334, E.377, N.422, N.423 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:N.332, B:A.333, B:E.377, B:N.423

1 x FMT: FORMIC ACID(Non-functional Binders)

FMT.6: 4 residues within 4Å: Chain A: V.407, V.408, A.409, R.413 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.409, A:A.409, A:R.413

2 x 7RD: (R,E)-3-(4-AZIDOBUTYL)-4-HYDROXY-5-METHYL-5-(2-METHYLBUTA-1,3-DIEN-1-YL)THIOPHEN-2(5H)-ONE(Non-covalent)

7RD.7: 19 residues within 4Å: Chain A: Q.194, F.233, F.260, F.262, H.299, M.300, V.301, A.302, P.303, H.334, T.336, T.338, G.341, H.368, I.370, F.425, G.426, F.427, G.429 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.260, A:F.260, A:P.303, A:T.336, A:F.425, A:F.427, A:F.427 Hydrogen bonds: A:Q.194, A:T.338, A:H.368 7RD.13: 17 residues within 4Å: Chain B: Q.194, F.233, F.260, F.262, H.299, M.300, V.301, A.302, P.303, H.334, T.336, H.368, I.370, F.425, G.426, F.427, G.429 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.260, B:F.260, B:P.303, B:T.336, B:F.425, B:F.427, B:F.427 Hydrogen bonds: B:Q.194 Water bridges: B:T.338

2 x M7U: (2R)-2-(hexadecanoyloxy)-3-{[(10R)-10-methyloctadecanoyl]oxy}propyl phosphate(Non-covalent)

M7U.8: 23 residues within 4Å: Chain A: Y.105, G.138, A.142, E.143, A.193, E.222, G.223, P.224, I.225, E.226, L.228, P.229, A.232, F.262, G.263, E.264, H.368, I.370 Chain B: I.145, V.165, I.168, M.169 Ligands: EDO.1 20 PLIP interactions: 16 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:Y.105, A:A.142, A:E.143, A:E.143, A:A.193, A:P.224, A:I.225, A:E.226, A:L.228, A:L.228, A:P.229, A:A.232, A:F.262, A:E.264, A:I.370, A:I.370, B:I.145, B:V.165, B:I.168, B:M.169 M7U.14: 25 residues within 4Å: Chain A: I.145, V.165, I.168, M.169 Chain B: Y.105, G.138, L.139, A.142, E.143, V.146, A.193, E.222, G.223, P.224, I.225, E.226, L.228, P.229, A.232, F.262, G.263, E.264, H.368, S.369, I.370 21 PLIP interactions: 17 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:Y.105, B:L.139, B:E.143, B:E.143, B:V.146, B:A.193, B:P.224, B:I.225, B:E.226, B:L.228, B:L.228, B:P.229, B:A.232, B:F.262, B:E.264, B:I.370, B:I.370, A:I.145, A:V.165, A:I.168, A:M.169

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Schiebel, J. et al., Structural Basis for the Recognition of Mycolic Acid Precursors by Kasa, a Condensing Enzyme and Drug Target from Mycobacterium Tuberculosis. J.Biol.Chem. (2013)

Release Date

2013-10-09

Peptides

3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3-OXOACYL-[ACYL-CARRIER-PROTEIN] SYNTHASE 1

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